perllearner007

Hi I am trying to convert .qual and .fna file to fastq using the script provided here. http://seqanswers.com/forums/showthread.php?t=2775&highlight=fasta+qual+fastq The code is as follows: #!/usr/bin/perl use warnings; use strict; use Data::Dumper; use File::Basename; my $inFasta = $ARGV[0]; my $baseName = basename($inFasta, qw/Reads.fna/); my $inQual = $baseName . "/Users/myfolder/Reads.qual"; my $outFastq = …

I am trying to learn how to fetch hyperlinks using perl for an input list of names with ids. Here is what I have come up with so far. Am I heading in the right direction? Any simple ways to get hyperlinks using perl without the HTML table? #!/usr/bin/perl use …

Okay pardon me for this silly question (I am learning perl!) but how do we run a perl file that has many sub functions. For example, if a file called thisismyfile.pl has following sub functions sub thisismyfunction1 sub thisismyfunction2 where sub thisismyfunction1 will output table 1 and sub thisismyfunction2 will …

Hello, I have a file inputfile abc pqr ghi lmn xyz How do I extract certain line in using perl? For example: I want rows pqr, ghi, lmn. I want to assign line numbers and extract these rows..so for pqr, ghi and lmn I will use lines 2, 3 and …

Hello all, I have tab delim file as follows #file1 #version1.1 #columns with the information as follows state1 class1 report_version_1.1 9428 4567 . . call=1;times=5;toss=head->tail;sno=A1B1;effect=positive state1 class1 report_version_1.1 3862 4877 . . call=1;times=5;toss=head->tail;sno=A1B2;effect=negative state1 class1 report_version_1.1 2376 4567 . . call=1;times=5;toss=head->tail;sno=;effect=positive state2 class1 report_version_1.1 4378 2345 . . call=1;times=5;toss=tail->tail;sno=A1B3;effect=positive,negative, both …

I have a delim-tab file ID NAME FAMILYTAG EFFECT 001 John Black Positive 002 Kate Rhodes,Mich Positive 003 Aaron Sunders Negative 004 Shirley Rhodes Negative 005 Dexter Sunders,Hark Positive I want to input this file(which is much larger) and read in a name for eg: Kate. I want the script …